Stillness Infant School, Stillness Juniors School, and Baring Primary School will receive a share of £226,000 in funding to help them become more energy efficient.
The funding, secured by the council, will be used to install solar panels at the schools.
This is expected to reduce energy costs and carbon emissions, as well as create savings that can be reinvested into the classroom.
The three schools are among 35 across 16 London boroughs chosen to take part in the pilot.
The council will also work with the schools to develop long-term plans to further reduce carbon emissions and deliver environmental benefits.
Mayor of London, Sadiq Khan, said: “I am delighted to announce the first schools across the capital to benefit from my new Greener Schools initiative.
“This investment will help schools reduce their energy costs so they can spend more on vital resources such as books, technology and staff and cut carbon emissions so schools can play their part in tackling air pollution in the capital.
“Working with the boroughs, we’ve been able to leverage a further £9.6m to fund more vital projects in more schools, helping to meet our target of achieving net zero by 2030, as we continue working to build a greener and fairer London for everyone.”
Councillor Louise Krupski, deputy mayor of Lewisham and cabinet member for environment, transport and climate action, said: “I am delighted to work with the Mayor of London and his team to decarbonise our local schools.
“This funding will not only unlock significant environmental benefits but will also create opportunities to reinvest savings from energy bills into the classroom.
“This is an excellent example of climate action in practice.”